RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy13245
(130 letters)
>gnl|CDD|185487 PTZ00158, PTZ00158, 40S ribosomal protein S15A; Provisional.
Length = 130
Score = 256 bits (657), Expect = 3e-90
Identities = 105/130 (80%), Positives = 117/130 (90%)
Query: 1 MVRVNVLSDALKSINNAEKRGKRQVLIRPCSKVIVKFLTVMMKHGYIGEFEIVDDHRAGK 60
MVR++VL+D L+SI NAEK+GKRQVLIRP SKV+VKFL VM KHGYIGEFEIVDDHR+GK
Sbjct: 1 MVRMSVLADCLRSIVNAEKQGKRQVLIRPSSKVVVKFLQVMQKHGYIGEFEIVDDHRSGK 60
Query: 61 IVVNLKGRLNKCGVISPRFDVPIRHIEKWTNNLLPSRQFGYVVLTTSGGIMDHEEARRKH 120
IVVNL GRLNKCGVISPRFDV + EKW NN+LPSRQFG+VVLTTS GIMDHEEARR+H
Sbjct: 61 IVVNLNGRLNKCGVISPRFDVTLGEFEKWANNILPSRQFGHVVLTTSYGIMDHEEARRRH 120
Query: 121 LGGKILGFFF 130
GGKILGFF+
Sbjct: 121 TGGKILGFFY 130
>gnl|CDD|215075 PLN00146, PLN00146, 40S ribosomal protein S15a; Provisional.
Length = 130
Score = 235 bits (601), Expect = 9e-82
Identities = 102/130 (78%), Positives = 117/130 (90%)
Query: 1 MVRVNVLSDALKSINNAEKRGKRQVLIRPCSKVIVKFLTVMMKHGYIGEFEIVDDHRAGK 60
MVR +VL+DALK++ NAEKRGKRQVLIRP SKV++KFL VM KHGYIGEFE+VDDHR+GK
Sbjct: 1 MVRRSVLNDALKTMYNAEKRGKRQVLIRPSSKVVIKFLKVMQKHGYIGEFEVVDDHRSGK 60
Query: 61 IVVNLKGRLNKCGVISPRFDVPIRHIEKWTNNLLPSRQFGYVVLTTSGGIMDHEEARRKH 120
IVV L GRLNKCGVISPRFDV ++ IE WT LLPSRQFGY+VLTTS GIMDHEEARRK+
Sbjct: 61 IVVELNGRLNKCGVISPRFDVKVKEIEAWTARLLPSRQFGYIVLTTSAGIMDHEEARRKN 120
Query: 121 LGGKILGFFF 130
+GGK+LGFF+
Sbjct: 121 VGGKVLGFFY 130
>gnl|CDD|179721 PRK04034, rps8p, 30S ribosomal protein S8P; Reviewed.
Length = 130
Score = 176 bits (450), Expect = 1e-58
Identities = 65/128 (50%), Positives = 88/128 (68%)
Query: 1 MVRVNVLSDALKSINNAEKRGKRQVLIRPCSKVIVKFLTVMMKHGYIGEFEIVDDHRAGK 60
MV ++ L++AL +I NAE GK++V+I+P SK+I L VM GYIGEFE +DD RAGK
Sbjct: 1 MVLLDPLANALSTIKNAEMVGKKEVIIKPASKLIGNVLRVMQDEGYIGEFEYIDDGRAGK 60
Query: 61 IVVNLKGRLNKCGVISPRFDVPIRHIEKWTNNLLPSRQFGYVVLTTSGGIMDHEEARRKH 120
V L GR+NKCG I PR+ V EKW LP+R FG ++++TS G+M H+EAR K
Sbjct: 61 FKVELLGRINKCGAIKPRYPVKYDEFEKWEKRYLPARDFGILIVSTSKGVMSHKEAREKG 120
Query: 121 LGGKILGF 128
+GG +L +
Sbjct: 121 IGGVLLAY 128
>gnl|CDD|223174 COG0096, RpsH, Ribosomal protein S8 [Translation, ribosomal
structure and biogenesis].
Length = 132
Score = 142 bits (360), Expect = 7e-45
Identities = 52/133 (39%), Positives = 80/133 (60%), Gaps = 4/133 (3%)
Query: 1 MVRVNVLSDALKSINNAEKRGKRQVLIRPCSKVIVKFLTVMMKHGYIGEFEIVDDHRAGK 60
M+ + L+D L I NAE+ K++V+ P SK+ L V+ K GYI +FE++DD R GK
Sbjct: 1 MMMTDPLADMLTRIRNAERA-KKEVVSMPASKLKGAILKVLKKEGYIKDFEVIDDGRKGK 59
Query: 61 IVVNLKGRLNKCGVISPRFDVPIRHIEKWTN-NLLPSRQ--FGYVVLTTSGGIMDHEEAR 117
+ V LK R+N CGVISP V + + LP+ G +++TS G+M +EAR
Sbjct: 60 LRVQLKYRINGCGVISPIKRVSKPGLRVYEKKRELPAVLNGLGIAIVSTSKGVMTDKEAR 119
Query: 118 RKHLGGKILGFFF 130
+K +GG++L + +
Sbjct: 120 KKGVGGEVLCYVW 132
>gnl|CDD|215906 pfam00410, Ribosomal_S8, Ribosomal protein S8.
Length = 129
Score = 121 bits (307), Expect = 6e-37
Identities = 42/136 (30%), Positives = 67/136 (49%), Gaps = 17/136 (12%)
Query: 5 NVLSDALKSINNAEKRGKRQVLIRPCSKVIVKFLTVMMKHGYIGEFEIVDDHRAGK-IVV 63
+ ++D L I NA+ K VLI P SK+ + L ++ + GYI FE+++D R GK I V
Sbjct: 1 DPIADMLTRIRNAQMAKKETVLI-PASKLKISILKILKEEGYIKGFEVIEDERNGKFIKV 59
Query: 64 NLK---------GRLNKCGVISPRFDVPIRHIEKWTNNLLPSRQFGYVVLTTSGGIMDHE 114
LK + + R V + + K G +L+TS G+M
Sbjct: 60 TLKYDKNGKPVITGIKRISKPGLRVYVSYKELPK------VLGGLGIAILSTSKGVMTDR 113
Query: 115 EARRKHLGGKILGFFF 130
EAR+K +GG++L + +
Sbjct: 114 EARKKGVGGEVLCYVW 129
>gnl|CDD|234658 PRK00136, rpsH, 30S ribosomal protein S8; Validated.
Length = 130
Score = 61.2 bits (150), Expect = 4e-13
Identities = 37/133 (27%), Positives = 65/133 (48%), Gaps = 25/133 (18%)
Query: 7 LSDALKSINNAEKRGKRQVLIRPCSKVIVKFLTVMMKHGYIGEFEIVDDHRAGKIVVNLK 66
++D L I NA+ V + P SK+ V ++ + GYI ++E+ +D + G + + LK
Sbjct: 6 IADMLTRIRNAQMAKHETVSM-PASKLKVAIAEILKEEGYIKDYEVEEDGKQGILRITLK 64
Query: 67 -----------GRLNKCG--VISPRFDVPIRHIEKWTNNLLPSRQFGYVVLTTSGGIMDH 113
R++K G V + ++P K N L G +++TS G+M
Sbjct: 65 YGEGEPVIEGIKRVSKPGLRVYKKKDELP-----KVLNGL------GIAIVSTSKGVMTD 113
Query: 114 EEARRKHLGGKIL 126
EAR+ +GG++L
Sbjct: 114 REARKAGVGGEVL 126
>gnl|CDD|214344 CHL00042, rps8, ribosomal protein S8.
Length = 132
Score = 52.9 bits (128), Expect = 7e-10
Identities = 37/140 (26%), Positives = 59/140 (42%), Gaps = 26/140 (18%)
Query: 1 MVRVNVLSDALKSINNAEKRGKRQVLIRPCSKVIVKFLTVMMKHGYIGEFEIVDDHRAGK 60
M + ++D L I NA K V I P + + + ++++ G+I ++
Sbjct: 1 MGN-DTIADMLTRIRNANMVKKGTVRI-PATNITENIVKILLREGFIENVREHRENNKYF 58
Query: 61 IVVNLKGRLNKCGVISPRFDVPIRHIEKWTNNLLPSRQ--------------FGYVVLTT 106
+V+ LK R NK ++ I K P + G V+L+T
Sbjct: 59 LVLTLKYRGNKKKPYITT----LKRISK------PGLRIYSNYKEIPRVLGGMGIVILST 108
Query: 107 SGGIMDHEEARRKHLGGKIL 126
S GIM EAR K +GG+IL
Sbjct: 109 SKGIMTDREARLKGIGGEIL 128
>gnl|CDD|185228 PRK15328, PRK15328, invasion protein IagB; Provisional.
Length = 160
Score = 28.7 bits (64), Expect = 0.73
Identities = 22/59 (37%), Positives = 31/59 (52%), Gaps = 12/59 (20%)
Query: 11 LKSINNA-----EKRG--KRQVLIRPCSKVIV--KFLTVMMK-HGYIGEFEIVDDHRAG 59
L IN+ +K G ++Q+L PC VIV L+ MMK +GY +E V + AG
Sbjct: 63 LMQINSFHMKRLKKMGISEKQLLQDPCISVIVGASILSDMMKIYGY--SWEAVGAYNAG 119
>gnl|CDD|131310 TIGR02257, cobalto_cobN, cobaltochelatase, CobN subunit.
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Heme, porphyrin, and cobalamin].
Length = 1122
Score = 28.9 bits (65), Expect = 0.83
Identities = 8/17 (47%), Positives = 11/17 (64%)
Query: 36 KFLTVMMKHGYIGEFEI 52
K++ M +HGY G FE
Sbjct: 1023 KWIDGMKRHGYKGAFEF 1039
>gnl|CDD|173305 PRK14844, PRK14844, bifunctional DNA-directed RNA polymerase subunit
beta/beta'; Provisional.
Length = 2836
Score = 28.8 bits (64), Expect = 0.87
Identities = 17/58 (29%), Positives = 32/58 (55%), Gaps = 5/58 (8%)
Query: 9 DALKSINNAEKRGKRQVLIRPCSKVI--VKFLTVMMKHGYIGEFEIVDDHRAGKIVVN 64
D + + ++RGKR +LI+P + I V++L KH + E + V R G ++++
Sbjct: 2579 DGYVAFSEKDRRGKRSILIKPVDEQISPVEYLVSRSKHVIVNEGDFV---RKGDLLMD 2633
>gnl|CDD|215525 PLN02972, PLN02972, Histidyl-tRNA synthetase.
Length = 763
Score = 28.7 bits (64), Expect = 1.1
Identities = 19/55 (34%), Positives = 28/55 (50%), Gaps = 5/55 (9%)
Query: 34 IVKFLTVMMKHGYIGEFEIVDDHRAGKIVVNLKGRLNKCGVISPRFDVPIRHIEK 88
I+K LT ++ IG +E+ +HR K+ L G L CGV +F I+K
Sbjct: 460 IIKVLTELLDELDIGTYEVKLNHR--KL---LDGMLEICGVPPEKFRTICSSIDK 509
>gnl|CDD|235663 PRK05989, cobN, cobaltochelatase subunit CobN; Reviewed.
Length = 1244
Score = 27.9 bits (63), Expect = 1.5
Identities = 8/17 (47%), Positives = 12/17 (70%)
Query: 36 KFLTVMMKHGYIGEFEI 52
K++ M +HGY G FE+
Sbjct: 1144 KWIAGMKRHGYKGAFEM 1160
>gnl|CDD|217077 pfam02514, CobN-Mg_chel, CobN/Magnesium Chelatase. This family
contains a domain common to the cobN protein and to
magnesium protoporphyrin chelatase. CobN is implicated in
the conversion of hydrogenobyrinic acid a,c-diamide to
cobyrinic acid. Magnesium protoporphyrin chelatase is
involved in chlorophyll biosynthesis.
Length = 1079
Score = 27.5 bits (62), Expect = 2.4
Identities = 9/17 (52%), Positives = 12/17 (70%)
Query: 36 KFLTVMMKHGYIGEFEI 52
K++ MM+HGY G EI
Sbjct: 992 KWIEGMMRHGYKGAREI 1008
>gnl|CDD|193600 cd09986, LOTUS_1_TDRD7, The first LOTUS domain on Tudor-containing
protein 7 (TDRD7). The first LOTUS domain on
Tudor-containing protein 7 (TDRD7): TDRD7 contains three
N-terminal LOTUS domains and three Tudor domain repeats
at the C-terminus. It belongs to the evolutionary
conserved Tudor domain-containing protein (TDRD) family
involved in germ cell development. In mice, TDRD7
together with TDRD1/MTR-1, TDRD5 and TDRD6 forms a
ribonucleoprotein complex in the intermitochondrial
cements (IMCs) and the chromatoid bodies (CBs) involving
in RNA processing for spermatogenesis. TDRD7 is
functionally essential for the differentiation of germ
cells. The exact molecular function of LOTUS domain on
TDRD7 remains to be characterized. Its occurrence in
proteins associated with RNA metabolism suggests that it
might be involved in RNA binding function. The presence
of several basic residues and RNA fold recognition
motifs support this hypothesis. The RNA binding function
might be the first step of regulating mRNA translation
or localization.
Length = 88
Score = 25.5 bits (56), Expect = 4.4
Identities = 11/35 (31%), Positives = 16/35 (45%), Gaps = 3/35 (8%)
Query: 70 NKCGVISPRFDVPIRHIEKWTNNLLPSRQFGYVVL 104
+K GV PR + + T +P +Q GY L
Sbjct: 15 SKGGVSLPRLQGEYKEL---TGEQIPFKQLGYHTL 46
>gnl|CDD|240594 cd12937, GUCT_RH7_like, RNA-binding GUCT domain found in plant
DEAD-box ATP-dependent RNA helicase 7 (RH7) and similar
proteins. This subfamily corresponds to the Gu
C-terminal (GUCT) domain of RH7 and similar proteins.
RH7, also termed plant RNA helicase 75 (PRH75), is a new
nucleus-localized member of the DEAD-box protein family
from higher plants. It displays a weak ATPase activity
which is barely stimulated by RNA ligands. RH7 contains
an N-terminal KDES domain rich in lysine, glutamic acid,
aspartic acid, and serine residues, seven highly
conserved helicase motifs in the central region, a GUCT
domain, and a C-terminal GYR domain harboring a large
number of glycine residues interrupted by either
arginines or tyrosines. RH7 is RNA specific and harbors
two possible RNA-binding motifs, the helicase motif VI
(HRIGRTGR) and the C-terminal glycine-rich GYR domain.
Length = 86
Score = 25.2 bits (56), Expect = 5.3
Identities = 19/77 (24%), Positives = 35/77 (45%), Gaps = 8/77 (10%)
Query: 33 VIVKFLTVMMKHGYIGEFEIVDDHRAGKIVVNLKG-RL--NKCGVISPRFDVPIRHIEKW 89
+++K T + GY+ + + + IV ++KG L + G + FDVP IE++
Sbjct: 13 LLLKSNTPIRSPGYV--WNALRRYLPEDIVESIKGMTLTADGKGAV---FDVPSELIEEF 67
Query: 90 TNNLLPSRQFGYVVLTT 106
+ + R V T
Sbjct: 68 LSAWVDKRGVTLEVATE 84
>gnl|CDD|222350 pfam13732, DUF4162, Domain of unknown function (DUF4162). This
domain is found at the C-terminus of bacterial ABC
transporter proteins. The function is not known.
Length = 84
Score = 24.4 bits (54), Expect = 9.4
Identities = 11/46 (23%), Positives = 21/46 (45%), Gaps = 1/46 (2%)
Query: 9 DALKSINNAEKRGKRQVLIRPCSKVIVK-FLTVMMKHGYIGEFEIV 53
+ L + + EK G +V ++ + + L + + GYI FE
Sbjct: 27 EELPGVESVEKTGDGKVELKLEDEEDAQEILEELTEKGYIRRFEQE 72
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.326 0.143 0.429
Gapped
Lambda K H
0.267 0.0806 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,834,353
Number of extensions: 621777
Number of successful extensions: 628
Number of sequences better than 10.0: 1
Number of HSP's gapped: 621
Number of HSP's successfully gapped: 22
Length of query: 130
Length of database: 10,937,602
Length adjustment: 86
Effective length of query: 44
Effective length of database: 7,123,158
Effective search space: 313418952
Effective search space used: 313418952
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 53 (24.0 bits)